Query psy15301
Match_columns 947
No_of_seqs 111 out of 328
Neff 1.5
Searched_HMMs 46136
Date Fri Aug 16 17:35:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15301.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15301hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2241|consensus 100.0 5.3E-32 1.1E-36 271.3 8.3 128 135-266 93-254 (255)
2 PLN02610 probable methionyl-tR 99.9 6.5E-22 1.4E-26 220.3 8.3 128 135-266 639-800 (801)
3 cd02798 tRNA_bind_CsaA tRNA-bi 97.8 9.3E-06 2E-10 72.2 2.3 54 149-205 32-107 (107)
4 PRK10089 tRNA-binding protein; 97.8 9.1E-06 2E-10 72.9 1.1 38 166-206 67-112 (112)
5 TIGR02222 chap_CsaA export-rel 97.7 2.3E-05 4.9E-10 70.2 2.9 56 149-206 30-107 (107)
6 TIGR00399 metG_C_term methiony 97.3 9.8E-05 2.1E-09 68.8 1.2 62 142-205 53-136 (137)
7 cd02800 tRNA_bind_EcMetRS_like 97.3 0.0001 2.2E-09 64.5 1.2 53 151-206 33-105 (105)
8 cd02799 tRNA_bind_EMAP-II_like 97.2 0.00016 3.5E-09 63.4 2.1 29 178-206 68-105 (105)
9 PF01588 tRNA_bind: Putative t 96.2 0.002 4.3E-08 55.9 1.4 56 142-200 12-84 (95)
10 cd02153 tRNA_bindingDomain The 95.9 0.003 6.4E-08 54.3 1.1 56 142-200 12-87 (99)
11 PRK12267 methionyl-tRNA synthe 95.0 0.013 2.8E-07 64.8 2.3 68 136-205 548-647 (648)
12 COG0073 ARC1 EMAP domain [Gene 93.1 0.045 9.8E-07 50.2 1.5 54 142-195 32-102 (123)
13 PRK00133 metG methionyl-tRNA s 93.0 0.044 9.6E-07 61.3 1.6 62 136-200 573-660 (673)
14 cd02796 tRNA_bind_bactPheRS tR 88.4 0.17 3.7E-06 44.0 0.6 15 178-192 65-79 (103)
15 PF04019 DUF359: Protein of un 30.1 38 0.00083 32.1 2.3 67 387-457 34-100 (121)
16 PRK00629 pheT phenylalanyl-tRN 30.0 15 0.00033 42.6 -0.5 16 177-193 107-122 (791)
17 COG1588 POP4 RNase P/RNase MRP 30.0 38 0.00083 31.8 2.2 50 173-222 31-92 (95)
18 TIGR00472 pheT_bact phenylalan 26.5 24 0.00052 41.0 0.3 15 177-192 109-123 (798)
19 PF00558 Vpu: Vpu protein; In 25.4 38 0.00083 30.9 1.3 39 635-679 32-70 (81)
No 1
>KOG2241|consensus
Probab=99.97 E-value=5.3e-32 Score=271.30 Aligned_cols=128 Identities=27% Similarity=0.347 Sum_probs=115.4
Q ss_pred cccccccccCC----------ccc--cccCCCC-CcccccchhHHHhhhhhhcccc------------eEeEEecceeee
Q psy15301 135 CLEASMIFPTR----------KSS--RPISTGP-SSLSLGFGAAAFAGFVLAGFSG------------LVLVSLSTGDLD 189 (947)
Q Consensus 135 ClSa~~I~ptr----------ksi--~pis~g~-ss~sLg~g~aaF~~~V~a~~~G------------~lrGIKSqGMVL 189 (947)
=.+.+|||+|. |+| +-|++|+ -||-+++|...|.-- ++.|+ +.|||+|+||||
T Consensus 93 ~~~~LDiRvG~Ivka~kHpdADsLYve~IdvgE~~PRTVvSGLvk~vpl--eemq~R~VvvlcNLKPakmRgv~S~gMvl 170 (255)
T KOG2241|consen 93 DVSLLDIRVGKIVKAGKHPDADSLYVEEIDVGEAEPRTVVSGLVKHVPL--EEMQNRLVVVLCNLKPAKMRGVKSQGMVL 170 (255)
T ss_pred CcceeeEEEeEEEEecccCCcceeEEEEeeecccccceeehhhHhhCCH--HHHhCCeEEEEeccccccccccccceeEE
Confidence 34568888777 787 8999999 899999999987543 55555 456799999999
Q ss_pred eccCCCc--eeee-------ccceEEEcCCCCCCCCCCCcchhhHhhhcCCceecCCeeEEEcCeeeEEecCcceEEecc
Q psy15301 190 CGVLDAR--WEGK-------CQRRWKLHGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTVENVEGFVTSQR 260 (947)
Q Consensus 190 CASNADh--VELL-------PGERVfFEGFEGEPDpVLNPKKKIWEKVQPDLKTNDDGVATYKGkPF~TSGKAGpCTApS 260 (947)
|||++|| ||+| |||||+|+||+|+||++||||||+||++||||+|+++|+|+|||.+|+|+ .|.|+++|
T Consensus 171 caSs~d~~~VE~l~pP~gs~pGdRv~fegfegePd~~LnPKKKiwE~iqpdl~t~~~~va~yKg~~~~~~--~G~~~a~t 248 (255)
T KOG2241|consen 171 CASSPDKSVVEPLAPPAGSKPGDRVTFEGFEGEPDKELNPKKKIWEKIQPDLKTNEEGVATYKGAPFETK--KGVCTAQT 248 (255)
T ss_pred ecCCcccceeeeccCCCCCCCCCeeeecCCCCCcchhcChhhhhHHHhCCCcccccceEEEecCCceecc--CceEEEee
Confidence 9999998 9999 99999999999999999999999999999999999999999999999998 49999999
Q ss_pred cCCcee
Q psy15301 261 VNPLNN 266 (947)
Q Consensus 261 LKNA~I 266 (947)
|+|++|
T Consensus 249 i~n~~I 254 (255)
T KOG2241|consen 249 ISNGGI 254 (255)
T ss_pred ccCCCC
Confidence 999987
No 2
>PLN02610 probable methionyl-tRNA synthetase
Probab=99.85 E-value=6.5e-22 Score=220.33 Aligned_cols=128 Identities=23% Similarity=0.245 Sum_probs=110.4
Q ss_pred cccccccccCC----------ccc--cccCCCC-CcccccchhHHHhhhhhhcccc------------eEeEEecceeee
Q psy15301 135 CLEASMIFPTR----------KSS--RPISTGP-SSLSLGFGAAAFAGFVLAGFSG------------LVLVSLSTGDLD 189 (947)
Q Consensus 135 ClSa~~I~ptr----------ksi--~pis~g~-ss~sLg~g~aaF~~~V~a~~~G------------~lrGIKSqGMVL 189 (947)
=|+.++|+++. +++ ..|+.|. .++.+++|++.|... ++..| +++||.|+||||
T Consensus 639 ~~~~~dlrVg~I~~~~~hp~adkL~~~~Vd~G~~~~r~ivsG~~~~~~~--e~l~G~~Vvv~~nlkp~klrGv~S~GMll 716 (801)
T PLN02610 639 DVSRLDIRVGLIVKAEKHPDADSLYVEEIDVGEGAPRTVVSGLVKYIPL--EEMQNRKVCVLCNLKPAAMRGIKSQAMVL 716 (801)
T ss_pred cceeeeeEEEEEEEEEeecCCCcceEEEEEeCCCceEEEEeCccccCCh--HHhCCCEEEEEEEecccccCCcccceeEE
Confidence 37778888877 455 5688896 689999999887522 33333 667899999999
Q ss_pred eccCCCc--eeee-------ccceEEEcCCCCCCCCCCCcchhhHhhhcCCceecCCeeEEEcCeeeEEecCcceEEecc
Q psy15301 190 CGVLDAR--WEGK-------CQRRWKLHGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTVENVEGFVTSQR 260 (947)
Q Consensus 190 CASNADh--VELL-------PGERVfFEGFEGEPDpVLNPKKKIWEKVQPDLKTNDDGVATYKGkPF~TSGKAGpCTApS 260 (947)
||+++++ |+|+ ||+||+|+||+++|+++||||||+||+|||+|+||++|+|+|||.+|+|+ +|+|++++
T Consensus 717 ~a~~~~~~~~~ll~~~~~~~~G~~v~~~~~~~~p~~~~~~k~k~~~~~~~~l~~~~~~~~~~~~~~~~~~--~g~~~~~~ 794 (801)
T PLN02610 717 AASNSDHTKVELVEPPESAAVGERVTFPGFEGEPDDVLNPKKKVWETLQPDLHTNSELVACYKDVPFTTS--AGVCKVAS 794 (801)
T ss_pred ecccCCCCceEEEeCCCCCCCCCEEEeCCCCCCcccccCcccchHHHhCCCCEECCceEEEECCEEEEec--CCCeEccc
Confidence 9998764 8888 89999999999999999999999999999999999999999999999997 49999999
Q ss_pred cCCcee
Q psy15301 261 VNPLNN 266 (947)
Q Consensus 261 LKNA~I 266 (947)
|+||.|
T Consensus 795 ~~~~~i 800 (801)
T PLN02610 795 IANGSI 800 (801)
T ss_pred CCCCEe
Confidence 999987
No 3
>cd02798 tRNA_bind_CsaA tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain.
Probab=97.82 E-value=9.3e-06 Score=72.22 Aligned_cols=54 Identities=6% Similarity=-0.221 Sum_probs=39.9
Q ss_pred cccCCCC-CcccccchhHHHh-------------hhhhhcccceEeEEecceeeeeccCCC-ceeee-------ccceE
Q psy15301 149 RPISTGP-SSLSLGFGAAAFA-------------GFVLAGFSGLVLVSLSTGDLDCGVLDA-RWEGK-------CQRRW 205 (947)
Q Consensus 149 ~pis~g~-ss~sLg~g~aaF~-------------~~V~a~~~G~lrGIKSqGMVLCASNAD-hVELL-------PGERV 205 (947)
..++.|. ..+.+.+|++.|. +|++.. +++|+.|+||||||++++ .++|+ +|+||
T Consensus 32 ~~Vd~G~~~~r~ivsg~~~~~~~e~l~gk~v~~v~Nlkp~---k~~G~~S~gm~l~~~~~~~~~~~~~~~~~~~~G~~i 107 (107)
T cd02798 32 LKVDFGEIGVKQSSAQITKYYKPEELIGRQVVAVVNFPPK---QIAGVLSEVLVLGADDEGGEVVLLVPDREVPNGAKV 107 (107)
T ss_pred EEEEecCccceehhhhhhhcCCHHHhcCCcEEEEeCCCCc---eecceeccEEEEEEEcCCCcEEEecCCCCCCCcCCC
Confidence 4456665 6778888888766 344433 888999999999999874 58877 67775
No 4
>PRK10089 tRNA-binding protein; Provisional
Probab=97.75 E-value=9.1e-06 Score=72.91 Aligned_cols=38 Identities=3% Similarity=-0.427 Sum_probs=29.8
Q ss_pred HHhhhhhhcccceEeEEecceeeeeccCCCc-eeee-------ccceEE
Q psy15301 166 AFAGFVLAGFSGLVLVSLSTGDLDCGVLDAR-WEGK-------CQRRWK 206 (947)
Q Consensus 166 aF~~~V~a~~~G~lrGIKSqGMVLCASNADh-VELL-------PGERVf 206 (947)
.|.+|++.. +++|+.|+||||||+++++ ++|+ +|+||+
T Consensus 67 ~~v~Nlkp~---~~~G~~S~gmil~~~~~~~~~~l~~p~~~~~~G~~i~ 112 (112)
T PRK10089 67 VAVVNFPPK---QIAGFMSEVLVLGFEDEDGEVVLLTPDRPVPNGVKLV 112 (112)
T ss_pred EEEECCCcc---eecCccccEEEEEEEcCCCeEEEecCCCCCCCcCCcC
Confidence 344565555 7889999999999998776 8888 788874
No 5
>TIGR02222 chap_CsaA export-related chaperone CsaA. This model describes Bacillus subtilis CsaA, an export-related chaperone that interacts with the Sec system, and related proteins from a number of other bacteria and archaea. The crystal structure is known for the homodimer from Thermus thermophilus.
Probab=97.70 E-value=2.3e-05 Score=70.18 Aligned_cols=56 Identities=7% Similarity=-0.192 Sum_probs=42.6
Q ss_pred cccCCCC--CcccccchhHHHhhhhhhcccc------------eEeEEecceeeeeccCCCc-eeee-------ccceEE
Q psy15301 149 RPISTGP--SSLSLGFGAAAFAGFVLAGFSG------------LVLVSLSTGDLDCGVLDAR-WEGK-------CQRRWK 206 (947)
Q Consensus 149 ~pis~g~--ss~sLg~g~aaF~~~V~a~~~G------------~lrGIKSqGMVLCASNADh-VELL-------PGERVf 206 (947)
..++.|. ..+.+.+|++.|... ++..| +++|+.|+||||||.+++. ++|+ +|+||+
T Consensus 30 l~vd~G~~~~~r~ivsgi~~~~~~--e~L~gk~v~~v~Nl~p~k~~G~~S~gMil~~~~~~~~~~l~~~~~~~~~G~~v~ 107 (107)
T TIGR02222 30 LWVDFGTEIGVKQSSAQITKLYKP--EDLIGRLVVAVVNFPPKQIAGFLSEVLVLGVIDEQGRVVLLQPDRPVPNGTKIA 107 (107)
T ss_pred EEEEecCcCCcceEehhhhhhCCH--HHhCCCeEEEEECCCCceeCCccccEEEEEEECCCCeEEEecCCCCCCCcCCcC
Confidence 4566674 358899999988764 44544 5678999999999998764 8887 788875
No 6
>TIGR00399 metG_C_term methionyl-tRNA synthetase C-terminal region/beta chain. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model describes a region of the methionyl-tRNA synthetase that is present at the C-terminus of MetG in some species (E. coli, B. subtilis, Thermotoga maritima, Methanobacterium thermoautotrophicum), and as a separate beta chain in Aquifex aeolicus. It is absent in a number of other species (e.g. Mycoplasma genitalium, Mycobacterium tuberculosis), while Pyrococcus horikoshii has both a full length MetG and a second protein homologous to the beta chain only. Proteins hit by this model should called methionyl-tRNA synthetase beta chain if and only if the model metG hits a separate protein not also hit by this model.
Probab=97.27 E-value=9.8e-05 Score=68.84 Aligned_cols=62 Identities=11% Similarity=-0.023 Sum_probs=41.7
Q ss_pred ccCCccc--cccCCCCCcccccchhHHHhhhhhhccc------------ceEeEEecceeeeeccCCC-ceeee------
Q psy15301 142 FPTRKSS--RPISTGPSSLSLGFGAAAFAGFVLAGFS------------GLVLVSLSTGDLDCGVLDA-RWEGK------ 200 (947)
Q Consensus 142 ~ptrksi--~pis~g~ss~sLg~g~aaF~~~V~a~~~------------G~lrGIKSqGMVLCASNAD-hVELL------ 200 (947)
+|..+++ -.++.|...+.+..|++.|..- .... .+++||.|+||||||.+++ .|+|+
T Consensus 53 hp~adkL~v~~Vd~G~~~~qIvsg~~~~~~~--~~l~G~~v~~~~nlkp~k~~Gv~S~GMlls~~~~~~~~~l~~~~~~~ 130 (137)
T TIGR00399 53 VEKSDKLLKLKLDLGDEKRQIVSGIAGYYTP--EELVGKKVIVVANLKPAKLFGVKSEGMILAAEDDGKVLFLLSPDQEA 130 (137)
T ss_pred cCCCCcceEEEEEeCCceEEEEeCcccCcCH--hHcCCCEEEeeEEecCccCCCeEeccEEEEEecCCCeEEEecCCCCC
Confidence 4445555 4466666557777777555421 2222 2667899999999999988 48888
Q ss_pred -ccceE
Q psy15301 201 -CQRRW 205 (947)
Q Consensus 201 -PGERV 205 (947)
+|+||
T Consensus 131 ~~G~~i 136 (137)
T TIGR00399 131 IAGERI 136 (137)
T ss_pred CCcCCc
Confidence 78887
No 7
>cd02800 tRNA_bind_EcMetRS_like tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine transfer RNAs (tRNAmet). AaTrbp111 is structure-specific molecular chaperone recognizing the L-shape of the tRNA fold. AaTrbp111 plays a role in nuclear trafficking of tRNAs. The functional unit of EcMetRs and AaTrbp111 is a homodimer, this domain acts as the dimerization domain.
Probab=97.27 E-value=0.0001 Score=64.52 Aligned_cols=53 Identities=13% Similarity=-0.011 Sum_probs=35.8
Q ss_pred cCCCCCcccccchhHHHh-------------hhhhhcccceEeEEecceeeeeccCCCceeee-------ccceEE
Q psy15301 151 ISTGPSSLSLGFGAAAFA-------------GFVLAGFSGLVLVSLSTGDLDCGVLDARWEGK-------CQRRWK 206 (947)
Q Consensus 151 is~g~ss~sLg~g~aaF~-------------~~V~a~~~G~lrGIKSqGMVLCASNADhVELL-------PGERVf 206 (947)
++.|...+.+..|+..+. ++++. ++++||.|+||+||+.++..++|+ +|+||+
T Consensus 33 vd~G~~~~~iv~g~~~~~~~~~l~g~~v~~~~nl~~---~~~~Gv~S~GMl~s~~~~~~~~l~~~~~~~~~G~~i~ 105 (105)
T cd02800 33 VDLGEEERQIVSGIAKFYPPEELVGKKVVVVANLKP---RKLRGVESQGMILAAEDGGKLKLLTPDEEVEPGSRVS 105 (105)
T ss_pred EEeCCeEEEEEeCcccccCHhHhccCceEeEeeECC---ccCCCeEeceEEEEecCCCeEEEEeCCCCCCCcCCcC
Confidence 455544555666655442 22233 367889999999999988668887 788873
No 8
>cd02799 tRNA_bind_EMAP-II_like tRNA-binding-domain-containing EMAP2-like proteins. This family contains a diverse fraction of tRNA binding proteins, including Caenorhabditis elegans methionyl-tRNA synthetase (CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS), Saccharomyces cerevisiae Arc1p, human p43 and EMAP2. CeMetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multiple activities during apoptosis, angiogenesis and inflammation and participates in malignant transformation. A EMAP-II-like cytokine also is released from hTyrRS upon cleavage. The active cytokine heptapeptide locates to this domain.
Probab=97.23 E-value=0.00016 Score=63.38 Aligned_cols=29 Identities=17% Similarity=-0.025 Sum_probs=24.1
Q ss_pred eEeEEecceeeeeccCCC--ceeee-------ccceEE
Q psy15301 178 LVLVSLSTGDLDCGVLDA--RWEGK-------CQRRWK 206 (947)
Q Consensus 178 ~lrGIKSqGMVLCASNAD--hVELL-------PGERVf 206 (947)
+++|+.|+||+|||.+.+ ++.++ +|+||+
T Consensus 68 ~~~G~~S~GMll~~~~~~~~~~~~~~~~~~~~~G~~i~ 105 (105)
T cd02799 68 KMRGVKSQGMVLCASNADHEKVELLEPPEGAKPGERVT 105 (105)
T ss_pred eECCeeeceEEEEeccCCCCcEEEEECCCCCCCCCEeC
Confidence 788999999999999875 46666 788873
No 9
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases []. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme []. This domain may perform a common function in tRNA aminoacylation [].; GO: 0000049 tRNA binding; PDB: 3BU2_C 1PYB_A 2Q2I_A 2Q2H_A 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 2CWP_A ....
Probab=96.23 E-value=0.002 Score=55.87 Aligned_cols=56 Identities=13% Similarity=-0.018 Sum_probs=33.9
Q ss_pred ccCCccc--cccCCCCCcccccchhHH-------------HhhhhhhcccceEeEEecceeeeeccC-CC-ceeee
Q psy15301 142 FPTRKSS--RPISTGPSSLSLGFGAAA-------------FAGFVLAGFSGLVLVSLSTGDLDCGVL-DA-RWEGK 200 (947)
Q Consensus 142 ~ptrksi--~pis~g~ss~sLg~g~aa-------------F~~~V~a~~~G~lrGIKSqGMVLCASN-AD-hVELL 200 (947)
||..+++ -.++.|.-.+.+..|+.- |++++... +++|+.|+||+|||+. .+ +..++
T Consensus 12 hp~sdkL~~~~Vd~G~~~~~Ivsg~~n~~~~~~lv~~~~~~v~n~~~~---~i~Gv~SeGMlls~~e~~~~~~~ll 84 (95)
T PF01588_consen 12 HPNSDKLYVLKVDIGEEERQIVSGAKNVYEPEVLVGKKVVVVANLKPR---KIRGVESEGMLLSASELGDGSVGLL 84 (95)
T ss_dssp ETTSSSEEEEEEESSSSEEEEEESCTTTSTHHHHTTTEEEEETTSCBE---EETTEEEESEE-EEECSTSSEEEEE
T ss_pred CCCCCEEEEEEEEeCCceEEEEeccccccChhhhcceeEEEEEccCCc---EEEeccCCEEEEEeeccCCCCEEEE
Confidence 4555555 334444433555555544 44454444 8999999999999996 33 46665
No 10
>cd02153 tRNA_bindingDomain The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p, Thermus thermophilus CsaA, Aquifex aeolicus Trbp111, human p43 and human EMAP-II. PheRS, MetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. The molecular chaperones Trbp111 and CsaA also contain this domain. CsaA has export related activities; Trbp111 is structure-specific recognizing the L-shape of the tRNA fold. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multi
Probab=95.93 E-value=0.003 Score=54.32 Aligned_cols=56 Identities=16% Similarity=-0.046 Sum_probs=35.0
Q ss_pred ccCCccc--cccCCCC-CcccccchhHHH-------------hhhhhhcccceEeEEecceeeeeccCC----Cceeee
Q psy15301 142 FPTRKSS--RPISTGP-SSLSLGFGAAAF-------------AGFVLAGFSGLVLVSLSTGDLDCGVLD----ARWEGK 200 (947)
Q Consensus 142 ~ptrksi--~pis~g~-ss~sLg~g~aaF-------------~~~V~a~~~G~lrGIKSqGMVLCASNA----DhVELL 200 (947)
+|..+++ -.++.|. ..+.+..|+.-+ +++++.. +++|+.|+||++|++.. +++.++
T Consensus 12 ~p~~~kL~~~~vd~G~~~~~~ivsg~~~~~~~~~~~g~~v~~~~~l~~~---~~~g~~S~GMl~s~~~~g~~~~~~~i~ 87 (99)
T cd02153 12 HPNADKLYVLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAVNLKPK---KLRGVESEGMLLSAEELGLEEGSVGIL 87 (99)
T ss_pred CCCCCCCEEEEEEeCCCcEEEEEeCCcccCChHHhCCCEEEEEEecccc---cCCCeecccEEeeccccCCCCCceEEE
Confidence 4444444 3455554 455566665555 3444444 88999999999999985 245555
No 11
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=95.01 E-value=0.013 Score=64.81 Aligned_cols=68 Identities=12% Similarity=0.048 Sum_probs=45.2
Q ss_pred ccccccccCC----------ccc--cccCCCC-CcccccchhHHHhhhhhhcccc------------eEeEEecceeeee
Q psy15301 136 LEASMIFPTR----------KSS--RPISTGP-SSLSLGFGAAAFAGFVLAGFSG------------LVLVSLSTGDLDC 190 (947)
Q Consensus 136 lSa~~I~ptr----------ksi--~pis~g~-ss~sLg~g~aaF~~~V~a~~~G------------~lrGIKSqGMVLC 190 (947)
|+.++|+++. +++ -.++.|. .++.++.|++.+. +.....| +++||.|+|||||
T Consensus 548 f~~~d~~vg~i~~~~~~p~adkL~~~~vd~G~~~~~~iv~g~~~~~--~~~~l~g~~v~~~~nl~~~~~~Gv~S~gMl~s 625 (648)
T PRK12267 548 FDKVELRVAEVLEAEKVEKSDKLLKLQVDLGEEEPRQIVSGIAKFY--PPEELVGKKVVVVANLKPAKLMGEESQGMILA 625 (648)
T ss_pred hhhhceeEEEEEeeccCCCCCccceEEEEeCCCceEEEEeCCcccC--CHhHhCCCeEEEEEeecccccCCcccceEEEE
Confidence 4556665554 555 4567774 5688888887654 2233333 5668999999999
Q ss_pred ccCCCceeee-------ccceE
Q psy15301 191 GVLDARWEGK-------CQRRW 205 (947)
Q Consensus 191 ASNADhVELL-------PGERV 205 (947)
|..++++.++ +|+||
T Consensus 626 ~~~~~~~~l~~~~~~~~~G~~~ 647 (648)
T PRK12267 626 AEDDGKLTLLTVDKEVPNGSKV 647 (648)
T ss_pred eccCCeEEEEeCCCCCCCcCCC
Confidence 9885567666 56665
No 12
>COG0073 ARC1 EMAP domain [General function prediction only]
Probab=93.11 E-value=0.045 Score=50.15 Aligned_cols=54 Identities=19% Similarity=0.043 Sum_probs=38.2
Q ss_pred ccCCccc--cccCCCC--CcccccchhHHHhhh----------hhh---cccceEeEEecceeeeeccCCC
Q psy15301 142 FPTRKSS--RPISTGP--SSLSLGFGAAAFAGF----------VLA---GFSGLVLVSLSTGDLDCGVLDA 195 (947)
Q Consensus 142 ~ptrksi--~pis~g~--ss~sLg~g~aaF~~~----------V~a---~~~G~lrGIKSqGMVLCASNAD 195 (947)
||..+++ -.++.|. -++-+..|++-|.-. |+- =-..+++|++|+|||+||...+
T Consensus 32 ~p~adkL~~~~Vd~G~~~~~~qiv~G~~n~~~~~~vv~a~v~~v~~~~~ikp~klrG~~S~GMics~~e~~ 102 (123)
T COG0073 32 HPNADKLLVLKVDLGDEKEPRQIVCGAPNFYAGEKLVGAKVGAVLNGGKLKPAKLRGVESEGMLLSAEELG 102 (123)
T ss_pred CCCCCeeEEEEEEcCCCCcEEEEEcCCccccCCceeeeeeEEEEeCCCcccceeecCcccceEEEEcccCC
Confidence 4555656 5678885 478888888876542 222 2234899999999999999765
No 13
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=93.02 E-value=0.044 Score=61.29 Aligned_cols=62 Identities=8% Similarity=-0.075 Sum_probs=41.5
Q ss_pred ccccccccCC----------ccc--cccCCCCCcccccchhHHHhhhhhhcccc------------eE-eEEecceeeee
Q psy15301 136 LEASMIFPTR----------KSS--RPISTGPSSLSLGFGAAAFAGFVLAGFSG------------LV-LVSLSTGDLDC 190 (947)
Q Consensus 136 lSa~~I~ptr----------ksi--~pis~g~ss~sLg~g~aaF~~~V~a~~~G------------~l-rGIKSqGMVLC 190 (947)
|..++|+++. +++ -.++.|...+.++.|++.+. +.....| ++ +|| |+|||||
T Consensus 573 f~~~di~vg~I~~~~~~p~~~~l~~~~vd~G~~~~~iv~g~~~~~--~~~~l~G~~v~~~~nlkp~~~~~Gv-S~gMl~~ 649 (673)
T PRK00133 573 FAKVDLRVAKIVEAEKVEGADKLLKLTLDLGEETRQVFSGIKSAY--DPEELVGKLVVMVANLAPRKMKFGV-SEGMVLA 649 (673)
T ss_pred HhhhhcceeeeEeeecCCCCCccceeeEecCCceeEEEcCccccC--CHHHHhcCeeEEEEeeccccccCCc-cceeEEE
Confidence 4456766555 445 45677876788889887663 2122223 56 889 9999999
Q ss_pred ccCCC-ceeee
Q psy15301 191 GVLDA-RWEGK 200 (947)
Q Consensus 191 ASNAD-hVELL 200 (947)
|.+++ .|.++
T Consensus 650 ~~~~~~~i~~l 660 (673)
T PRK00133 650 AGPGGGDLFLL 660 (673)
T ss_pred eecCCCcEEEe
Confidence 98764 47666
No 14
>cd02796 tRNA_bind_bactPheRS tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate the 2'OH of the terminal ribose of tRNA they belong functionally to class 1 aaRSs. This domain has general tRNA binding properties and is believed to direct tRNAphe to the active site of the enzyme.
Probab=88.44 E-value=0.17 Score=43.99 Aligned_cols=15 Identities=20% Similarity=-0.090 Sum_probs=13.2
Q ss_pred eEeEEecceeeeecc
Q psy15301 178 LVLVSLSTGDLDCGV 192 (947)
Q Consensus 178 ~lrGIKSqGMVLCAS 192 (947)
+++|+.|+||++++.
T Consensus 65 ~~~G~~S~GMl~s~~ 79 (103)
T cd02796 65 KLRGVESEGMLCSAK 79 (103)
T ss_pred eeCCcccchhCcchh
Confidence 789999999997765
No 15
>PF04019 DUF359: Protein of unknown function (DUF359); InterPro: IPR007164 This is family of archaebacterial proteins, which are about 170 amino acids in length. They have no known function. The most conserved portion of the protein contains the sequence GEEDL that may be important for its function.
Probab=30.11 E-value=38 Score=32.10 Aligned_cols=67 Identities=28% Similarity=0.532 Sum_probs=53.9
Q ss_pred ccccccccCHHHHHHHHHHHHHHHHHhhcceEEEeecCCCcccccceeeecccCCcceEEEEeCCCCcccc
Q psy15301 387 VNKLNVRMEPAELLQKLQENVEKWYLKHWESVILYKRPGEDFLVQPAVISLSETPKKSVILYKCPGEDFLV 457 (947)
Q Consensus 387 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 457 (947)
-..+.|+=.|..+-..|-+.+.+++ ..=..+.++-.--||.++-||++- -|..++|+|-=|+|-..+
T Consensus 34 ~~~i~v~NPpG~It~el~~ai~~a~-~~~~~~~I~V~GEEDL~~lPail~---aP~gs~V~YGQP~eGvV~ 100 (121)
T PF04019_consen 34 YRVIEVKNPPGTITEELIEAIKKAL-ESGKPVVIFVDGEEDLAVLPAILY---APEGSVVLYGQPGEGVVL 100 (121)
T ss_pred ceEEEEECCCCcccHHHHHHHHHHH-hCCCCEEEEEeChHHHHHHHHHHh---CCCCCEEEECCCCCeEEE
Confidence 3456778888888888888888884 446788888888899999999875 477899999999987654
No 16
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=30.03 E-value=15 Score=42.62 Aligned_cols=16 Identities=25% Similarity=0.221 Sum_probs=12.6
Q ss_pred ceEeEEecceeeeeccC
Q psy15301 177 GLVLVSLSTGDLDCGVL 193 (947)
Q Consensus 177 G~lrGIKSqGMVLCASN 193 (947)
.+++||.|+||+ |+..
T Consensus 107 ~~~~Gv~S~GMl-cs~~ 122 (791)
T PRK00629 107 AKLRGVESEGML-CSAS 122 (791)
T ss_pred eecCCeEEchhc-ccHh
Confidence 489999999995 6543
No 17
>COG1588 POP4 RNase P/RNase MRP subunit p29 [Translation, ribosomal structure and biogenesis]
Probab=29.98 E-value=38 Score=31.84 Aligned_cols=50 Identities=16% Similarity=0.090 Sum_probs=36.0
Q ss_pred hcccceEeEEecceeeeeccCCCc------e--eee-c-cceEEEcC--CCCCCCCCCCcch
Q psy15301 173 AGFSGLVLVSLSTGDLDCGVLDAR------W--EGK-C-QRRWKLHG--YTRNPDPVLNPKK 222 (947)
Q Consensus 173 a~~~G~lrGIKSqGMVLCASNADh------V--ELL-P-GERVfFEG--FEGEPDpVLNPKK 222 (947)
.+|+|+|++-.-+-.|+-...... . |+- + |++|.++| .-+.|+.-|..+.
T Consensus 31 vGI~G~VVdETkNtLvi~t~~~~~~VpK~~~vfef~~~~G~~vkVdG~lL~~rPE~Rlk~~~ 92 (95)
T COG1588 31 VGIEGRVVDETKNTLVIDTGSREKVVPKDGAVFEFEGPDGEKVKVDGRLLLGRPEDRLKKRW 92 (95)
T ss_pred cceeEEEEeeeccEEEEECCCceEEEecCcEEEEEEcCCCcEEEEcchhhhcCHHHHHhhhh
Confidence 578999999988888876665332 1 222 5 99999999 4588988885333
No 18
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from Bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the amino end, however.
Probab=26.47 E-value=24 Score=41.01 Aligned_cols=15 Identities=27% Similarity=0.235 Sum_probs=12.0
Q ss_pred ceEeEEecceeeeecc
Q psy15301 177 GLVLVSLSTGDLDCGV 192 (947)
Q Consensus 177 G~lrGIKSqGMVLCAS 192 (947)
++++||.|+||+ |+.
T Consensus 109 ~~~~Gv~S~GMl-cs~ 123 (798)
T TIGR00472 109 SKLRGVESEGML-CSE 123 (798)
T ss_pred eecCCeeechhc-ccH
Confidence 389999999995 544
No 19
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=25.40 E-value=38 Score=30.90 Aligned_cols=39 Identities=38% Similarity=0.569 Sum_probs=24.3
Q ss_pred hhhhhhhhHHHHHhHHhhhhccCCcccccCcCCccccccccChHH
Q psy15301 635 DNKRKRILEDIEDRIEEVVLGLDDADESGNELNEDQTSEAMDLKE 679 (947)
Q Consensus 635 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 679 (947)
..||.|-+..+-+||.| -|+.||||-+.|+-.+-+.|-+
T Consensus 32 k~~rqrkId~li~RIre------raEDSGnES~Gd~EeeL~~Lv~ 70 (81)
T PF00558_consen 32 KIKRQRKIDRLIERIRE------RAEDSGNESDGDEEEELSALVE 70 (81)
T ss_dssp -------CHHHHHHHHC------TTTCCHCTTTTCCHH-CHCCHH
T ss_pred HHHHHHhHHHHHHHHHc------ccccCCCCCCCcHHHHHHHHHH
Confidence 34555556666677776 5899999999998776777655
Done!